miRTarBase - #MIRT502561


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pre-miRNA Information
pre-miRNA hsa-mir-4720   
Genomic Coordinates chr16: 81385018 - 81385093
Description Homo sapiens miR-4720 stem-loop
Comment None
RNA Secondary Structure

Mature miRNA Information
Mature miRNA hsa-miR-4720-5p
Sequence 4| CCUGGCAUAUUUGGUAUAACUU |25
Evidence Experimental
Experiments Illumina
SNPs in miRNA
Mutant ID Mutant Position Mutant Source
rs750386566 4 dbSNP
rs532921899 5 dbSNP
rs1025678089 6 dbSNP
rs1435476609 11 dbSNP
rs1426449829 13 dbSNP
rs1349517705 17 dbSNP
rs1448030025 20 dbSNP
Putative Targets

Gene Information
Gene Symbol EBAG9   
Synonyms EB9, PDAF
Description estrogen receptor binding site associated, antigen, 9
Transcript NM_004215   
Other Transcripts NM_198120   
Expression
Putative miRNA Targets on EBAG9
3'UTR of EBAG9
(miRNA target sites are highlighted)		 
>EBAG9|NM_004215|3'UTR
   1 CACATGTTCAAATTTTATCATGCCAGTAGGAGAAATCTCAGCTCCACAACCCAAGCAACATTTGTATGGATTTAAGAGTA
  81 TTTTAAGAAGACATACTGCTTGATTTTAATACATTGATCAGGCCATCCAGGACACCACGATTCTCCCAAAGTACCTTGAA
 161 CTCTTAGTGATTGAGACTCAAAAAAACAAAAAAGACTTGAGACAATGTTTTCTTCAACATGCTCCAAATATAAGACATTT
 241 GTTTGCTGTACAGAAAGTATCACAAATGGAATATATCAGTACCTCTCAAGCTAGTGTTTCTAGCTAAATAAATGGGTGTA
 321 TATAATTTTATGGTGGAAAAGAACTGTACTGTCTGTTATGATTTCCTTCAATGTGCATAATGATAAAATAAATAATTTTA
 401 ATATTCTTTTGTTTCCATGGTTACCTGACCTAAATTAGATAAATTGTAGGGCTTTAGCTTTCTTATTTTTGTCAAAAGTT
 481 GGTGTTGACATACATTCCCTCTAATTTGAACTGGTATTGTTTACGTTTGATACAACATTAAGGAATTTGATGATTTTCAT
 561 TTCATGAAAATGACATTAAATGCAATAATTTTACTTATCATAAACATTTTGTACATCATTATTTTCTTTTGGATTAGTGT
 641 TGTCATACATGTAATTTATATCACATGTATAAACATTGAAAATCAACTAAAATGACATTTGTTCTACATTATAACTTGTG
 721 AGTTTCAAGAACTAGTATTAGTAGTTTTTTCCTTTCATTATAGATTGTAAGATGTTGTGGTATCTTTGAGTGCCTTAGTT
 801 CTTCCTTCCTCCCAAAAGCCATTAATTTACAAATGCTTAAAGCCATCAGGTCAAATATTTCAAAGCCTTTAGATGATTTC
 881 TGTACTAGCTTTAGATGTCTGACGTTATGTAGGTTACCTGTGTTCTTGGCTAGGAAAACATTATTGATTCATTAAATCAT
 961 AAAGGTGGGAATAATAATCTTTTATTTATGATGTTGATTGGCTCCAAAATAGTCTTAAGGAAATAAATACTGGGTCTGTA
1041 GGGGAAAAGTAGACTTCATAGTTTAAAATCCCATTAACCTTTTCACCGCAGTTGAAATGCATCCAGCCTGATTTTCCTAT
1121 CATTTTGGAATTTTTAAGGATTTTTACTTTCTTAAGTTACTGCCTAGAATCAACATTCGGTGAGATTTTGAAATGTCATA
1201 GATACTGTACAGGCCAAACCTTACTAATTTATTTTACTTAAAGTGATATTTTATAGAAAAATCATAAGTTATACAATGAG
1281 AACCCTTTAAGCCCTTAGCCTAAGCTTTCAGACTAAATGTGATTATAGAATAAGATGAAAGTTAACTTTGGTACAGAGCT
1361 TTTTATAGCCCCAAATTATATTTCCAGTTATTATATTCATTAGAATTTCTGCTAATAAACTCCCAACTTAAATAGAAAAA
1441 AAAAAAAAAAA
Target sites Provided by authors   Predicted by miRanda    DRVs    SNPs    DRVs & SNPs
miRNA-target interactions
(Predicted by miRanda)
ID Duplex structure Position Score MFE
1 
miRNA  3' uuCAA-UAUGGUUUA-UACGGUCc 5'
            ||| | |::  || ||||||| 
Target 5' atGTTCAAATTTTATCATGCCAGt 3'
 4 - 27 152.00 -10.00
2 
miRNA  3' uucaaUAUGGUUUAUACGGUCc 5'
               | |: :||||| :||| 
Target 5' atcacAAATGGAATATATCAGt 3'
 259 - 280 113.00 -7.10
3 
miRNA  3' uucaAUAUGGUU----UAUACGGUCc 5'
              |:|||:|:    | |||:| | 
Target 5' tttcTGTACTAGCTTTAGATGTCTGa 3'
 877 - 902 108.00 -7.40
DRVs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
COSN31592570 7 COSMIC
COSN30496380 8 COSMIC
COSN31535338 12 COSMIC
COSN26974432 20 COSMIC
COSN30483043 27 COSMIC
COSN31492756 33 COSMIC
COSN17177580 40 COSMIC
COSN31574874 56 COSMIC
COSN30184241 76 COSMIC
COSN31491617 77 COSMIC
COSN5106811 84 COSMIC
COSN30150037 88 COSMIC
COSN31607548 106 COSMIC
COSN22461262 123 COSMIC
COSN30473174 148 COSMIC
COSN31582367 150 COSMIC
COSN30462794 155 COSMIC
COSN28838861 187 COSMIC
COSN1357455 231 COSMIC
COSN30529124 246 COSMIC
COSN31532138 448 COSMIC
COSN22609910 632 COSMIC
COSN2251190 661 COSMIC
COSN7662330 1136 COSMIC
COSN2251191 1156 COSMIC
COSN22407414 1322 COSMIC
SNPs in gene 3'UTRs
Mutant ID Mutant Position Mutant Source
rs202170361 1 dbSNP
rs1324506313 3 dbSNP
rs1416808735 5 dbSNP
rs1316500035 6 dbSNP
rs371414312 11 dbSNP
rs751437681 12 dbSNP
rs1272425504 16 dbSNP
rs1280890009 17 dbSNP
rs757282698 23 dbSNP
rs374873383 26 dbSNP
rs1281444468 28 dbSNP
rs1045638550 31 dbSNP
rs1350510633 32 dbSNP
rs369253495 33 dbSNP
rs1169171364 40 dbSNP
rs1260679093 42 dbSNP
rs1801754 45 dbSNP
rs1335803612 54 dbSNP
rs756305303 56 dbSNP
rs1452978595 60 dbSNP
rs775025457 62 dbSNP
rs138671697 67 dbSNP
rs546063836 78 dbSNP
rs1408794508 80 dbSNP
rs1222179807 83 dbSNP
rs1293807435 86 dbSNP
rs868554408 89 dbSNP
rs1241731975 92 dbSNP
rs887469116 96 dbSNP
rs1183349781 126 dbSNP
rs1461958374 140 dbSNP
rs1239394547 146 dbSNP
rs1489645495 149 dbSNP
rs762430679 162 dbSNP
rs1307048193 164 dbSNP
rs1220998469 179 dbSNP
rs1263538580 180 dbSNP
rs1273795486 186 dbSNP
rs1476181896 188 dbSNP
rs563532862 188 dbSNP
rs1230566980 191 dbSNP
rs141461832 197 dbSNP
rs1314137691 198 dbSNP
rs186354636 200 dbSNP
rs867149379 205 dbSNP
rs986617377 215 dbSNP
rs997646676 223 dbSNP
rs1021110962 228 dbSNP
rs1018611986 229 dbSNP
rs1422830177 231 dbSNP
rs370904520 232 dbSNP
rs1387135673 236 dbSNP
rs1424697881 238 dbSNP
rs1001098358 244 dbSNP
rs554023271 251 dbSNP
rs1032333682 254 dbSNP
rs973980189 258 dbSNP
rs959651067 263 dbSNP
rs990897379 264 dbSNP
rs1207320997 266 dbSNP
rs763464154 270 dbSNP
rs917997863 272 dbSNP
rs971186453 277 dbSNP
rs1361055568 281 dbSNP
rs929608926 286 dbSNP
rs189488767 288 dbSNP
rs1488912624 294 dbSNP
rs774956410 295 dbSNP
rs938853900 296 dbSNP
rs780209911 297 dbSNP
rs1402512367 306 dbSNP
rs1364259888 315 dbSNP
rs1303138171 317 dbSNP
rs1357184628 317 dbSNP
rs929194518 319 dbSNP
rs1049461340 323 dbSNP
rs1284318963 337 dbSNP
rs762161337 340 dbSNP
rs1412923922 344 dbSNP
rs553665716 349 dbSNP
rs1479463618 350 dbSNP
rs1268253370 352 dbSNP
rs908853947 354 dbSNP
rs1213247134 355 dbSNP
rs1258795239 356 dbSNP
rs943029839 360 dbSNP
rs140265591 372 dbSNP
rs1269559237 383 dbSNP
rs1221286931 386 dbSNP
rs542433300 389 dbSNP
rs1283331189 392 dbSNP
rs1184525687 393 dbSNP
rs903212324 398 dbSNP
rs1370296624 402 dbSNP
rs998786086 407 dbSNP
rs1023570547 417 dbSNP
rs890506068 425 dbSNP
rs375048020 435 dbSNP
rs997258144 437 dbSNP
rs1443315258 440 dbSNP
rs1042517515 441 dbSNP
rs1163064643 442 dbSNP
rs1434864850 444 dbSNP
rs1259528397 445 dbSNP
rs902721342 449 dbSNP
rs115593130 451 dbSNP
rs1402484599 485 dbSNP
rs1033028787 491 dbSNP
rs1201426009 504 dbSNP
rs575695492 514 dbSNP
rs1344762363 519 dbSNP
rs1263240321 520 dbSNP
rs1453187379 521 dbSNP
rs1234729235 525 dbSNP
rs963860479 528 dbSNP
rs766686404 529 dbSNP
rs1382142905 531 dbSNP
rs1366461373 542 dbSNP
rs995445875 543 dbSNP
rs1450791555 557 dbSNP
rs1405563386 562 dbSNP
rs1380556305 567 dbSNP
rs1173268831 574 dbSNP
rs1424800334 577 dbSNP
rs1467593929 579 dbSNP
rs1371283745 584 dbSNP
rs1026880303 589 dbSNP
rs951040696 592 dbSNP
rs746964539 597 dbSNP
rs1025009358 599 dbSNP
rs959854083 605 dbSNP
rs117970035 612 dbSNP
rs201356879 614 dbSNP
rs867932722 614 dbSNP
rs114003797 616 dbSNP
rs758251748 618 dbSNP
rs145361157 619 dbSNP
rs1228363830 633 dbSNP
rs1460403990 637 dbSNP
rs1300294616 638 dbSNP
rs934665456 644 dbSNP
rs950548100 644 dbSNP
rs1382318556 650 dbSNP
rs1051811226 663 dbSNP
rs984684096 668 dbSNP
rs1397996254 669 dbSNP
rs890445629 670 dbSNP
rs1233918608 676 dbSNP
rs745415478 677 dbSNP
rs909128208 679 dbSNP
rs943333437 698 dbSNP
rs1391897922 701 dbSNP
rs1161447369 708 dbSNP
rs1175551585 711 dbSNP
rs1443719968 719 dbSNP
rs1368817576 720 dbSNP
rs1007672341 721 dbSNP
rs778789970 722 dbSNP
rs1249266240 727 dbSNP
rs375277807 732 dbSNP
rs1483687207 738 dbSNP
rs1277312615 739 dbSNP
rs180722065 741 dbSNP
rs866249219 746 dbSNP
rs1178373367 752 dbSNP
rs1403668762 753 dbSNP
rs561582402 755 dbSNP
rs1247314194 756 dbSNP
rs1469052316 757 dbSNP
rs1329468399 758 dbSNP
rs117350724 761 dbSNP
rs1042135441 763 dbSNP
rs1372342930 768 dbSNP
rs1410437758 768 dbSNP
rs1301279786 771 dbSNP
rs1278435802 774 dbSNP
rs902667627 775 dbSNP
rs936839516 776 dbSNP
rs1164759169 781 dbSNP
rs1468303097 791 dbSNP
rs550171127 796 dbSNP
rs1345810852 798 dbSNP
rs1473255326 802 dbSNP
rs895380450 808 dbSNP
rs1197975860 822 dbSNP
rs1451511374 832 dbSNP
rs1004532281 835 dbSNP
rs1224935248 837 dbSNP
rs1260822911 838 dbSNP
rs1321884478 844 dbSNP
rs1200181266 850 dbSNP
rs1274403345 851 dbSNP
rs1012541212 853 dbSNP
rs1025382329 856 dbSNP
rs906544572 857 dbSNP
rs1352477389 870 dbSNP
rs994229913 872 dbSNP
rs1025736443 874 dbSNP
rs1331561603 875 dbSNP
rs1035393880 877 dbSNP
rs147973007 883 dbSNP
rs1251131176 895 dbSNP
rs950494484 896 dbSNP
rs1159523201 897 dbSNP
rs1480779909 902 dbSNP
rs1426650388 904 dbSNP
rs757131862 904 dbSNP
rs141644521 905 dbSNP
rs985020087 911 dbSNP
rs991273875 921 dbSNP
rs1445693723 923 dbSNP
rs1016137112 926 dbSNP
rs915634556 934 dbSNP
rs1261366220 940 dbSNP
rs1331457979 940 dbSNP
rs1218682465 950 dbSNP
rs1345635651 967 dbSNP
rs17450206 968 dbSNP
rs538844385 976 dbSNP
rs1327654415 979 dbSNP
rs922913760 989 dbSNP
rs1320949229 991 dbSNP
rs933008479 998 dbSNP
rs977774597 999 dbSNP
rs1414482837 1002 dbSNP
rs1426645722 1006 dbSNP
rs1174895184 1012 dbSNP
rs34035017 1021 dbSNP
rs1052435150 1024 dbSNP
rs1280990773 1039 dbSNP
rs533946485 1044 dbSNP
rs1189559569 1055 dbSNP
rs1466446369 1056 dbSNP
rs943340473 1064 dbSNP
rs923701203 1067 dbSNP
rs1209524192 1071 dbSNP
rs772473629 1074 dbSNP
rs553783376 1088 dbSNP
rs1054360882 1089 dbSNP
rs1342134338 1091 dbSNP
rs1341349298 1102 dbSNP
rs1298098184 1106 dbSNP
rs1230254021 1146 dbSNP
rs895341443 1148 dbSNP
rs948274723 1153 dbSNP
rs1301953290 1160 dbSNP
rs745636296 1168 dbSNP
rs150688745 1179 dbSNP
rs1490537071 1189 dbSNP
rs1428407095 1196 dbSNP
rs1224722447 1198 dbSNP
rs1169630294 1199 dbSNP
rs1451658736 1206 dbSNP
rs1383762837 1207 dbSNP
rs1048295629 1211 dbSNP
rs1267116910 1215 dbSNP
rs994176406 1231 dbSNP
rs762523093 1249 dbSNP
rs1202471520 1250 dbSNP
rs1025682492 1254 dbSNP
rs186129196 1265 dbSNP
rs1005657061 1273 dbSNP
rs1035993954 1276 dbSNP
rs117650614 1277 dbSNP
rs1311708974 1282 dbSNP
rs1228580178 1289 dbSNP
rs964590509 1293 dbSNP
rs975043740 1294 dbSNP
rs1012963988 1299 dbSNP
rs1030211169 1301 dbSNP
rs1408619024 1307 dbSNP
rs1350427093 1311 dbSNP
rs575613427 1317 dbSNP
rs1309232247 1318 dbSNP
rs954347383 1319 dbSNP
rs1426010352 1321 dbSNP
rs868722095 1328 dbSNP
rs1300729499 1337 dbSNP
rs977720658 1350 dbSNP
rs923650307 1351 dbSNP
rs1406199601 1355 dbSNP
rs958009784 1360 dbSNP
rs1180121913 1364 dbSNP
rs1472336896 1373 dbSNP
rs1252620024 1387 dbSNP
rs191326324 1392 dbSNP
rs1489832739 1404 dbSNP
rs1264662231 1407 dbSNP
rs989257989 1414 dbSNP
rs1382405501 1415 dbSNP
rs1319837592 1436 dbSNP
rs978475778 1437 dbSNP
Experimental Support 1 for Functional miRNA-Target Interaction
miRNA:Target ----
Validation Method
Conditions MCF7
Location of target site 3'UTR
Tools used in this research TargetScan , miRTarCLIP , Piranha
Original Description (Extracted from the article) ... PAR-CLIP data was present in SRR1045082. RNA binding protein: AGO2. Condition:Untreated ...

- Farazi TA; Ten Hoeve JJ; Brown M; et al., 2014, Genome biology.

miRNA-target interactions (Provided by authors)
ID Duplex structure Position
1 
miRNA  3' uucAAUAUGGUUUAUACGGUCc 5'
             || ||:|    ||||||| 
Target 5' aaaUUUUAUC----AUGCCAGu 3'
 		4 - 21
Article - Farazi TA; Ten Hoeve JJ; Brown M; et al.
- Genome biology, 2014
BACKGROUND: Various microRNAs (miRNAs) are up- or downregulated in tumors. However, the repression of cognate miRNA targets responsible for the phenotypic effects of this dysregulation in patients remains largely unexplored. To define miRNA targets and associated pathways, together with their relationship to outcome in breast cancer, we integrated patient-paired miRNA-mRNA expression data with a set of validated miRNA targets and pathway inference. RESULTS: To generate a biochemically-validated set of miRNA-binding sites, we performed argonaute-2 photoactivatable-ribonucleoside-enhanced crosslinking and immunoprecipitation (AGO2-PAR-CLIP) in MCF7 cells. We then defined putative miRNA-target interactions using a computational model, which ranked and selected additional TargetScan-predicted interactions based on features of our AGO2-PAR-CLIP binding-site data. We subselected modeled interactions according to the abundance of their constituent miRNA and mRNA transcripts in tumors, and we took advantage of the variability of miRNA expression within molecular subtypes to detect miRNA repression. Interestingly, our data suggest that miRNA families control subtype-specific pathways; for example, miR-17, miR-19a, miR-25, and miR-200b show high miRNA regulatory activity in the triple-negative, basal-like subtype, whereas miR-22 and miR-24 do so in the HER2 subtype. An independent dataset validated our findings for miR-17 and miR-25, and showed a correlation between the expression levels of miR-182 targets and overall patient survival. Pathway analysis associated miR-17, miR-19a, and miR-200b with leukocyte transendothelial migration. CONCLUSIONS: We combined PAR-CLIP data with patient expression data to predict regulatory miRNAs, revealing potential therapeutic targets and prognostic markers in breast cancer.
LinkOut: [PMID: 24398324]
CLIP-seq Support 1 for dataset SRR1045082
Method / RBP PAR-CLIP / AGO2
Cell line / Condition MCF7 / Untreated
Location of target site ENST00000337573.5 | 3UTR | UUCAAAUUUUAUCAUGCCAGUAG
Tools used in this analysis TargetScan, miRTarCLIP, and Piranha
Article / Accession Series PMID: 24398324 / SRX388831
CLIP-seq Viewer Link
MiRNA-Target Expression Profile
Dataset Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
MiRNA-Target Expression Profile (TCGA)
Tumor Pearson Correlation P-value for Pearson Correlation Spearman Correlation P-value for Spearman Correlation Samples Chart
40 hsa-miR-4720-5p Target Genes:
Functional analysis:
ID Target Description Validation methods
Strong evidence Less strong evidence
MIRT064869 ZBTB18 zinc finger and BTB domain containing 18 2 2
MIRT099937 SOX4 SRY-box 4 2 2
MIRT204534 SLC39A10 solute carrier family 39 member 10 2 4
MIRT221679 ZNRF2 zinc and ring finger 2 2 2
MIRT296659 MRGBP MRG domain binding protein 2 6
MIRT331634 AASDHPPT aminoadipate-semialdehyde dehydrogenase-phosphopantetheinyl transferase 2 2
MIRT337078 RER1 retention in endoplasmic reticulum sorting receptor 1 2 2
MIRT497580 PTCHD4 patched domain containing 4 2 2
MIRT498838 NAPEPLD N-acyl phosphatidylethanolamine phospholipase D 2 4
MIRT502561 EBAG9 estrogen receptor binding site associated, antigen, 9 2 2
MIRT508128 AMD1 adenosylmethionine decarboxylase 1 2 2
MIRT511875 GOLGA7 golgin A7 2 6
MIRT512924 UBL4A ubiquitin like 4A 2 2
MIRT513833 KLHL15 kelch like family member 15 2 6
MIRT515889 FAM182B family with sequence similarity 182 member B 2 2
MIRT520201 WASL Wiskott-Aldrich syndrome like 2 2
MIRT526045 GMDS GDP-mannose 4,6-dehydratase 2 2
MIRT533601 TNPO1 transportin 1 2 2
MIRT535539 PAFAH1B2 platelet activating factor acetylhydrolase 1b catalytic subunit 2 2 6
MIRT541150 PABPC1 poly(A) binding protein cytoplasmic 1 2 4
MIRT549609 TMEM101 transmembrane protein 101 2 2
MIRT552630 ZBTB41 zinc finger and BTB domain containing 41 2 2
MIRT555503 PNISR PNN interacting serine and arginine rich protein 2 2
MIRT560225 PCNA proliferating cell nuclear antigen 2 2
MIRT561671 RAPGEF2 Rap guanine nucleotide exchange factor 2 2 2
MIRT562103 ITGB1 integrin subunit beta 1 2 2
MIRT570710 E2F3 E2F transcription factor 3 2 2
MIRT570802 CKAP2L cytoskeleton associated protein 2 like 2 2
MIRT615261 DPF2 double PHD fingers 2 2 2
MIRT615389 ZNF747 zinc finger protein 747 2 2
MIRT616621 KCNJ11 potassium voltage-gated channel subfamily J member 11 2 4
MIRT641085 ZKSCAN2 zinc finger with KRAB and SCAN domains 2 2 2
MIRT654971 PLEKHA2 pleckstrin homology domain containing A2 2 2
MIRT667033 PDE3A phosphodiesterase 3A 2 2
MIRT677217 RASSF6 Ras association domain family member 6 2 2
MIRT699243 SLC6A8 solute carrier family 6 member 8 2 2
MIRT711673 TRMT5 tRNA methyltransferase 5 2 2
MIRT713922 CACNA2D1 calcium voltage-gated channel auxiliary subunit alpha2delta 1 2 2
MIRT722736 BRMS1 breast cancer metastasis suppressor 1 2 2
MIRT724997 CDC27 cell division cycle 27 2 2
miRNA-Drug Resistance Associations
miRNA Drug Name CID NSC FDA Effect/Pattern Detection Method Level Phenotype Condition
hsa-miR-4720-5p Gefitinib 123631 NSC715055 approved sensitive High Non-Small Cell Lung Cancer cell line (PC-9)
hsa-miR-4720-5p Yuanhuadine 6440572 sensitive High Non-Small Cell Lung Cancer cell line (PC-9)
hsa-miR-4720-5p Gefitinib 123631 NSC715055 approved resistant cell line (HCC827)
hsa-miR-4720-5p Gefitinib 123631 NSC715055 approved resistant cell line (PC9)
hsa-miR-4720-5p Osimertinib 71496458 NSC779217 approved resistant cell line (HCC827)
hsa-miR-4720-5p Cisplatin 5460033 NSC119875 approved resistant cell line (A549)
hsa-miR-4720-5p Paclitaxel 36314 NSC125973 approved resistant cell line (BAS)
hsa-miR-4720-5p Cisplatin 5460033 NSC119875 approved sensitive cell line (A2780)

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